recipe bioconductor-splinetimer

Time-course differential gene expression data analysis using spline regression models followed by gene association network reconstruction

Homepage

https://bioconductor.org/packages/3.10/bioc/html/splineTimeR.html

License

GPL-3

Recipe

/bioconductor-splinetimer/meta.yaml

Links

biotools: splinetimer, doi: 10.1371/journal.pone.0160791

This package provides functions for differential gene expression analysis of gene expression time-course data. Natural cubic spline regression models are used. Identified genes may further be used for pathway enrichment analysis and/or the reconstruction of time dependent gene regulatory association networks.

package bioconductor-splinetimer

Versions

1.14.0-1, 1.12.0-1, 1.10.0-0, 1.8.0-0, 1.6.0-0

Depends

• bioconductor-biobase >=2.46.0,<2.47.0

• bioconductor-fis >=1.14.0,<1.15.0

• bioconductor-gseabase >=1.48.0,<1.49.0

• bioconductor-limma >=3.42.0,<3.43.0

• r-base >=3.6,<3.7.0a0

• r-genenet >=1.2.13

• r-gtools

• r-igraph

• r-longitudinal >=1.1.12

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-splinetimer

and update with:

conda update bioconductor-splinetimer

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-splinetimer:<tag>

(see bioconductor-splinetimer/tags for valid values for <tag>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-splinetimer/README.html)